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FIRE (DISABLED - will be removed on 12/21/17)

Note: Due to lack of use, this software module has been disabled and will be removed from MSI systems on 12/21/17. If you need this software, please contact help@msi.umn.edu . FIRE is a motif discovery component of IGET. The software is available at: https://tavazoielab.c2b2.columbia.edu/FIRE/ Details on the implementation are published here: http://dx.doi.org/10.1016/j.molcel.2007.09.027

Qiime2

QIIME 2 is a powerful, extensible, and decentralized microbiome analysis package with a focus on data and analysis transparency. QIIME 2 enables researchers to start an analysis with raw DNA sequence data and finish with publication-quality figures and statistical results. QIIME 2 is a complete redesign and rewrite of the QIIME 1 microbiome analysis pipeline.

ABySS - Assembly By Short Sequence

ABySS is a de novo, parallel, paired-end genomic sequence assembler that is designed for short reads. The single-processor version is useful for assembling genomes up to 100 Mbases in size. The parallel version is implemented using MPI and is capable of assembling larger genomes. To assemble transcriptome data, consider the related program trans-abyss. Homepage: http://www.bcgsc.ca/platform/bioinfo/software/abyss

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